If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.We appreciate your help!
Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
Known Issues with VariantRecalibrator
The syntax for specifying argument tags has changed (and the documentation was out of sync for a while, though it is now fixed). The tags must now be specified with the argument name, not with the argument value, like this:
Note that the ":" and tags are listed with the argument name ("-resource"), not with the file name.